Cutibacterium acnes induces skin region-specific innate immune memory alterations in human keratinocytes
RNA-seq (gene expression) · human · 24 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 24 samples: 24 samples, each with a distinct title — no replicated groupsGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Read the full summary ↓
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE308379_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1330308 and SRA study SRP621305. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 24 sample titles: 24 distinct titles with little repetition. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM9244292 NHEK11, Control
- GSM9244293 NHEK11, C. acnes training
- GSM9244294 NHEK11, Pam3CSK4 induction
- GSM9244295 NHEK11, C. acnes training, Pam3CSK4 induction
- GSM9244296 NHEK21, Control
- GSM9244297 NHEK21, C. acnes training
- GSM9244298 NHEK21, Pam3CSK4 induction
- GSM9244299 NHEK21, C. acnes training, Pam3CSK4 induction
- GSM9244300 NHEK79, Control
- GSM9244301 NHEK79, C. acnes training
- GSM9244302 NHEK79, Pam3CSK4 induction
- GSM9244303 NHEK79, C. acnes training, Pam3CSK4 induction
- GSM9244304 NHEK22, Control
- GSM9244305 NHEK22, C. acnes training
- GSM9244306 NHEK22, Pam3CSK4 induction
- GSM9244307 NHEK22, C. acnes training, Pam3CSK4 induction
- GSM9244308 NHEK23, Control
- GSM9244309 NHEK23, C. acnes training
- GSM9244310 NHEK23, Pam3CSK4 induction
- GSM9244311 NHEK23, C. acnes training, Pam3CSK4 induction
- GSM9244312 NHEK59, Control
- GSM9244313 NHEK59, C. acnes training
- GSM9244314 NHEK59, Pam3CSK4 induction
- GSM9244315 NHEK59, C. acnes training, Pam3CSK4 induction
- GSE255918 Functional Dynamics of Dendritic Cells in Response to Cutibacterium acnes Strains Associated with Healthy and Acne-prone Skin 68 samples shares cutibacterium, acnes
- GSE334767 Human keratinocytes and fibroblasts coordinate early cutaneous innate defense against Candida auris 24 samples shares keratinocytes, innate
- GSE315350 Microbiome-Derived Indole-3-lactic Acid Attenuates Cutibacterium acnes–Induced Inflammation via the Aryl Hydrocarbon Receptor Pathway 18 samples shares cutibacterium, acnes
- GSE214138 Spatially resolved multi-omic profiling of human hippocampus reveals region-specific alterations in major depressive disorder [RNA-seq] 13 samples shares region-specific, alterations
- GSE289880 Stage-specific phenotypic and transcriptional alterations in HaCaT keratinocytes exposed to acute and chronic blue light 12 samples shares keratinocytes, alterations
- GSE255828 Cytokine stimulated keratinocytes 800 samples shares keratinocytes
- GSE256091 Proteogenomic Characterization Reveals Estrogen Signaling as a Target for Never-Smoker Lung Adenocarcinoma Patients without EGFR or ALK Alterations [RNA-seq] 141 samples shares alterations
- GSE270661 Characterisation of the regulatory landscape in Crohn’s disease reveals miRNA-associated alterations that shape anti-TNF response (CIBER-120) 119 samples shares alterations
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.